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    32 repositories

    • Bandage-NG

      Public
      TheBGAcademy 2024: Bandage-NG and Interacting with the assembly graphs made by de novo assemblers
      MIT License
      •1•0•0•0•Updated Nov 4, 2024Nov 4, 2024

    • goat

      Public
      TheBGAcademy 2024: Querying genome metadata and sequencing projects using GoaT
      MIT License
      •1•1•0•0•Updated Nov 4, 2024Nov 4, 2024

    • T2T_with_verko

      Public
      TheBGAcademy 2024: Learn how to run verkko assembler as well as going over the different outputs and common things to check an assembly for first.
      bioinformaticsbioinformatics-pipelinebga24
      Other
      •1•5•0•0•Updated Oct 25, 2024Oct 25, 2024

    • easel-and-entap

      Public
      TheBGAcademy 2024: Annotation best practise with EASEL and EnTAP
      MIT License
      •0•0•0•0•Updated Oct 25, 2024Oct 25, 2024

    • ASCC

      Public
      TheBGAcademy 2024: ASCC - The Automated System for Cobiont and Contamination detection pipeline
      MIT License
      •1•0•0•0•Updated Oct 24, 2024Oct 24, 2024

    • apollo3-annotation

      Public
      TheBGAcademy 2024: Collaborative Annotation with Apollo 3
      MIT License
      •1•2•0•0•Updated Oct 22, 2024Oct 22, 2024

    • gfastar-2024

      Public
      TheBGAcademy 2024: Gfastar: a tool suite to assist genome assembly
      MIT License
      •2•0•0•0•Updated Oct 18, 2024Oct 18, 2024

    • bga-site

      Public
      The homepage for all things involving The Biodiversity Genomics Academy!
      TypeScript
      •
      MIT License
      •1•0•0•5•Updated Oct 18, 2024Oct 18, 2024

    • smudgeplot

      Public
      TheBGAcademy 2024: Understanding k-mers and ploidy using Smudgeplot
      MIT License
      •5•0•0•0•Updated Oct 18, 2024Oct 18, 2024

    • thinking-in-cobiont-space

      Public
      TheBGAcademy 2024: Thinking in cobiont space
      HTML
      •
      MIT License
      •0•1•0•0•Updated Oct 18, 2024Oct 18, 2024

    • oma-omark

      Public
      TheBGAcademy 2024: OMA and OMArk for homology exploration and gene annotation quality control
      MIT License
      •1•0•0•0•Updated Oct 16, 2024Oct 16, 2024

    • busco

      Public
      TheBGAcademy 2024: Introduction to BUSCO, description of the pipelines and datasets, best practices and example use cases.
      MIT License
      •1•0•0•0•Updated Oct 14, 2024Oct 14, 2024

    • genome-note-publications

      Public
      TheBGAcademy 2024: Genome Note Publications
      tutorialpipelinenextflow
      MIT License
      •1•0•0•0•Updated Oct 11, 2024Oct 11, 2024

    • genomescope

      Public
      TheBGAcademy 2024: Genome profiling using GenomeScope
      MIT License
      •3•1•0•0•Updated Oct 11, 2024Oct 11, 2024

    • bird-micro-curation

      Public
      TheBGAcademy 2024: Manual curation of bird microchromosomes with HiC and gene mapping
      Shell
      •
      MIT License
      •7•0•0•0•Updated Oct 9, 2024Oct 9, 2024

    • GENESPACE

      Public
      TheBGAcademy 2024: A tour of comparative genomics in R with GENESPACE
      MIT License
      •0•0•0•0•Updated Oct 8, 2024Oct 8, 2024

    • ModDotPlot

      Public
      TheBGAcademy 2024: Exploring Satellite DNA using ModDotPlot
      MIT License
      •0•2•0•0•Updated Oct 7, 2024Oct 7, 2024

    • genomeassembly

      Public
      TheBGAcademy 2024: The TOL genomeassembly pipeline
      MIT License
      •3•0•0•0•Updated Oct 7, 2024Oct 7, 2024

    • S2G-manual-curation

      Public
      Samples 2 Genome (ASG): Introduction to Manual Curation of ASG samples - HiC and JBrowse
      Shell
      •
      MIT License
      •7•1•0•0•Updated Oct 5, 2024Oct 5, 2024

    • B3

      Public
      TheBGAcademy 2024: Gene prediction with BRAKER3
      AMPL
      •
      MIT License
      •6•3•0•0•Updated Oct 2, 2024Oct 2, 2024

    • ensembl-annotation

      Public
      BGAcademy 2024: Annotating genomes the Ensembl way
      MIT License
      •4•1•0•0•Updated Oct 2, 2024Oct 2, 2024

    • treeval-curation

      Public
      Biodiversity Genomics Academy: The Treeval pipeline: Generating evidence for manual curation
      MIT License
      •4•1•0•1•Updated Oct 2, 2024Oct 2, 2024

    • manual-curation

      Public
      Biodiversity Genomics Academy: Introduction to Manual Curation - HiC and JBrowse
      Shell
      •
      MIT License
      •7•0•0•0•Updated Oct 1, 2024Oct 1, 2024

    • S2G_metagenomics

      Public
      S2G
      MIT License
      •0•0•0•0•Updated Oct 1, 2024Oct 1, 2024

    • kmerbased_polishing

      Public
      TheBGAcademy 2024: A Kmer based automated approach to polishing T2T assemblies
      Shell
      •
      MIT License
      •0•0•0•0•Updated Oct 1, 2024Oct 1, 2024

    • colora

      Public
      TheBGAcademy 2024: De novo assembly with Colora
      1•2•0•0•Updated Oct 1, 2024Oct 1, 2024

    • inkscaping-graphs

      Public
      TheBGAcademy 2024: Making graphs with Inkscape
      MIT License
      •2•0•0•0•Updated Sep 26, 2024Sep 26, 2024

    • vgpgalaxy

      Public
      TheBGAcademy 2024: Assembling Genomes with the VGP-Galaxy Pipeline
      MIT License
      •1•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • thebgacademy_site

      Public
      A Django + PostgreSQL website to better support BGA activities (launching 2025).
      Python
      •0•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • TEMPLATE

      Public template
      The Template repo for BGA
      MIT License
      •0•0•0•0•Updated Aug 5, 2024Aug 5, 2024